1 files changed, 0 insertions, 97 deletions
diff --git a/sci-biology/mira/mira-4.0.2-r1.ebuild b/sci-biology/mira/mira-4.0.2-r1.ebuild
deleted file mode 100644
index cbd1309c474f..000000000000
--- a/sci-biology/mira/mira-4.0.2-r1.ebuild
+++ /dev/null
@@ -1,97 +0,0 @@
-# Copyright 1999-2021 Gentoo Authors
-# Distributed under the terms of the GNU General Public License v2
-
-EAPI=6
-
-MIRA_3RDPARTY_PV="06-07-2012"
-MY_PV="${PV/_}" # convert from mira-4.0_rc2 (Gentoo ebuild filename derived) to mira-4.0rc2 (upstream fromat)
-
-inherit autotools multilib
-
-DESCRIPTION="Whole Genome Shotgun and EST Sequence Assembler for Sanger, 454 and Illumina"
-HOMEPAGE="http://www.chevreux.org/projects_mira.html"
-SRC_URI="
-	https://sourceforge.net/projects/mira-assembler/files/MIRA/stable/"${PN}"-"${MY_PV}".tar.bz2
-	mirror://sourceforge/mira-assembler/mira_3rdparty_${MIRA_3RDPARTY_PV}.tar.bz2"
-#	https://sourceforge.net/projects/mira-assembler/files/MIRA/development/${P}.tar.bz2
-#	mirror://sourceforge/mira-assembler/mira_3rdparty_${MIRA_3RDPARTY_PV}.tar.bz2"
-
-S="${WORKDIR}"/"${PN}"-"${MY_PV}"
-
-SLOT="0"
-LICENSE="GPL-2"
-KEYWORDS="amd64 x86 ~amd64-linux ~x86-linux"
-IUSE="doc"
-
-CDEPEND="
-	dev-libs/boost:=[threads(+)]
-	dev-util/google-perftools"
-DEPEND="${CDEPEND}
-	sys-devel/flex
-	app-editors/vim-core
-	dev-libs/expat"
-RDEPEND="${CDEPEND}"
-
-#DOCS=( AUTHORS GETTING_STARTED NEWS README HELP_WANTED
-#	THANKS doc/3rdparty/scaffolding_MIRA_BAMBUS.pdf )
-DOCS=( AUTHORS GETTING_STARTED NEWS README HELP_WANTED THANKS )
-
-PATCHES=(
-	"${FILESDIR}/${PN}-4.0.2-boost-1.50.patch"
-	"${FILESDIR}/${PN}-4.0.2-cout.patch"
-	"${FILESDIR}/${PN}-4.0.2-cmath.patch"
-)
-
-src_prepare() {
-	find -name 'configure*' -or -name 'Makefile*' | xargs sed -i 's/flex++/flex -+/' || die
-
-	default
-
-	sed \
-		-e "s:-O[23]::g" \
-		-e "s:-funroll-loops::g" \
-		-i configure.ac || die
-
-	eautoreconf
-
-	# Remove C++ source files that upstream built with flex.
-	local f
-	local PREBUILT_CXX_LEXER_FILES=(
-		"${S}"/src/caf/caf_flexer.cc
-		"${S}"/src/io/exp_flexer.cc
-		"${S}"/src/mira/parameters_flexer.cc
-	)
-
-	for f in "${PREBUILT_CXX_LEXER_FILES[@]}"; do
-		if [[ -f ${f} ]] ; then
-			rm "${f}" || die "Failed to remove ${f}"
-		else
-			die "${f} not found"
-		fi
-	done
-}
-
-src_configure() {
-	econf \
-		--with-boost="${EPREFIX}/usr/$(get_libdir)" \
-		--with-boost-libdir="${EPREFIX}/usr/$(get_libdir)" \
-		--with-boost-thread=boost_thread-mt
-}
-
-#src_compile() {
-#	base_src_compile
-#	# TODO: resolve docbook incompatibility for building docs
-#	use doc && emake -C doc clean docs
-#}
-
-src_install() {
-	default
-
-	dobin "${WORKDIR}"/3rdparty/{sff_extract,qual2ball,*.pl}
-	dodoc "${WORKDIR}"/3rdparty/{README.txt,midi_screen.fasta}
-}
-
-pkg_postinst() {
-	einfo "Documentation is no longer built, you can find it at:"
-	einfo "http://mira-assembler.sourceforge.net/docs/DefinitiveGuideToMIRA.html"
-}